Docking and scoring in virtual screening for drug discovery: methods and applications

DB Kitchen, H Decornez, JR Furr… - Nature reviews Drug …, 2004 - nature.com
Computational approaches that'dock'small molecules into the structures of macromolecular
targets and'score'their potential complementarity to binding sites are widely used in hit …

The many roles of computation in drug discovery

WL Jorgensen - Science, 2004 - science.org
The Many Roles of Computation in Drug Discovery | Science news careers commentary
Journals Science Science brought to you byGoogle Indexer Log in science science …

A critical assessment of docking programs and scoring functions

GL Warren, CW Andrews, AM Capelli… - Journal of medicinal …, 2006 - ACS Publications
Docking is a computational technique that samples conformations of small molecules in
protein binding sites; scoring functions are used to assess which of these conformations best …

Combining docking and molecular dynamic simulations in drug design

H Alonso, AA Bliznyuk… - Medicinal research reviews, 2006 - Wiley Online Library
A rational approach is needed to maximize the chances of finding new drugs, and to exploit
the opportunities of potential new drug targets emerging from genomic and proteomic …

Lead discovery using molecular docking

BK Shoichet, SL McGovern, B Wei, JJ Irwin - Current opinion in chemical …, 2002 - Elsevier
As the structures of more and more proteins and nucleic acids become available, molecular
docking is increasingly considered for lead discovery. Recent studies consider the hit-rate …

Can we trust docking results? Evaluation of seven commonly used programs on PDBbind database

D Plewczynski, M Łaźniewski… - Journal of …, 2011 - Wiley Online Library
Docking is one of the most commonly used techniques in drug design. It is used for both
identifying correct poses of a ligand in the binding site of a protein as well as for the …

Towards the development of universal, fast and highly accurate docking/scoring methods: a long way to go

N Moitessier, P Englebienne, D Lee… - British journal of …, 2008 - Wiley Online Library
Accelerating the drug discovery process requires predictive computational protocols
capable of reducing or simplifying the synthetic and/or combinatorial challenge. Docking …

Virtual screening in drug discovery-a computational perspective

AS Reddy, SP Pati, PP Kumar… - Current Protein and …, 2007 - ingentaconnect.com
Virtual screening emerged as an important tool in our quest to access novel drug like
compounds. There are a wide range of comparable and contrasting methodological …

A detailed comparison of current docking and scoring methods on systems of pharmaceutical relevance

E Perola, WP Walters… - … : Structure, Function, and …, 2004 - Wiley Online Library
A thorough evaluation of some of the most advanced docking and scoring methods currently
available is described, and guidelines for the choice of an appropriate protocol for docking …

Assessing scoring functions for protein− ligand interactions

P Ferrara, H Gohlke, DJ Price, G Klebe… - Journal of medicinal …, 2004 - ACS Publications
An assessment of nine scoring functions commonly applied in docking using a set of 189
protein− ligand complexes is presented. The scoring functions include the CHARMm …